Pyroptosis -related potential diagnostic biomarkers in steroid-induced osteonecrosis of the femoral head.

{"sci_version": "1.2", "schema": "https://corpus.bntrg.co.uk/sci/1.0/sci.schema.json", "id": "pmid:37491198", "kind": "science-record", "revision": 4, "content_hash": "sha256:50136007b879e147eb7aeda6a0eb2bb35171a2cdedf62acec353691d4d897f0f", "created_at": "2026-11-01T19:02:16Z", "updated_at": "2026-11-01T22:52:23Z", "generator": {"name": "corpus-assay-engine", "run_id": "reading-sci-2026-11-01"}, "paper": {"state": "complete", "title": "Pyroptosis -related potential diagnostic biomarkers in steroid-induced osteonecrosis of the femoral head.", "doi": "10.1186/s12891-023-06729-8", "pmid": "37491198", "authors": ["Jin-Lian Chai", "Bo-Wen Lu", "Hai-Tao Du", "Ming-Tao Wen", "Xue-Zhen Liang", "Ping Wang"], "journal": "BMC musculoskeletal disorders", "year": 2023, "abstract": "PURPOSE: Steroid-induced necrosis of the femoral head (SONFH) is a refractory orthopedic hip disease occurring in young and middle-aged people, with glucocorticoids being the most common cause. Previous experimental studies have shown that cell pyroptosis may be involved in the pathological process of SONFH, but its pathogenesis in SONFH is still unclear. This study aims to screen and validate potential pyroptosis-related genes in SONFH diagnosis by bioinformatics analysis to further elucidate the mechanism of pyroptosis in SONFH.\nMETHODS: There were 33 pyroptosis-related genes obtained from the prior reviews. The mRNA expression was downloaded from GSE123568 dataset in the Gene Expression Omnibus (GEO) database, including 10 non-SONFH (following steroid administration) samples and 30 SONFH samples. The pyroptosis-related differentially expressed genes involved in SONFH were identified with \"affy\" and \"limma\" R package by intersecting the GSE123568 dataset with pyroptosis genes. In addition, Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway enrichment analyses of the pyroptosis-related differentially expressed genes involved in SONFH were conducted by \"clusterProfiler\" R package and visualized by \"GOplot\" R package. Then, the correlations between the expression levels of the pyroptosis-related differentially expressed genes involved in SONFH were confirmed with \"corrplot\" R package. Moreover, the protein-protein interaction (PPI) network was analysed by using GeneMANIA database. Next, The ROC curve of pyroptosis-related differentially expressed genes were analyzed by \"pROC\" R package.\nRESULTS: A total of 10 pyroptosis-related differentially expressed genes were identified between the peripheral blood samples of SONFH patients and non-SONFH patients based on the defined criteria, including 20 upregulated genes and 10 downregulated genes. The GO and KEGG pathway enrichment analyses revealed that these 10 pyroptosis-related differentially expressed genes involved in SONFH were particularly enriched in cysteine-type endopeptidase activity involved in apoptotic process, positive regulation of interleukin-1 beta secretion and NOD-like receptor signaling pathway. Correlation analysis revealed significant correlations among the 10 differentially expressed pyroptosis-related genes involved in SONFH. The PPI results demonstrated that the 10 pyroptosis-related differentially expressed genes interacted with each other. Compared to non-SONFH samples, these pyroptosis-related differentially expressed genes had good predictive diagnostic efficacy (AUC = 1.000, CI = 1.000-1.000) in the SONFH samples, and NLRP1 had the highest diagnostic value (AUC: 0.953) in the SONFH samples.\nCONCLUSIONS: There were 10 potential pyroptosis-related differentially expressed genes involved in SONFH were identified via bioinformatics analysis, which might serve as potential diagnostic biomarkers because they regulated pyroptosis. These results expand the understanding of SONFH associated with pyroptosis and provide new insights to further explore the mechanism of action and diagnosis of pyroptosis associated in SONFH.", "claims": [{"id": "claim-method", "statement": "The “affy” and “limma” R package were used to identify the pyroptosis-related differentially expressed genes between non-SONFH samples and SONFH samples in GSE123568.", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:37491198", "locator": "sections[4] \"Differentially expressed analysis of pyroptosis-related genes in SONFH\" paragraph 2", "quote": "The “affy” and “limma” R package were used to identify the pyroptosis-related differentially expressed genes between non-SONFH samples and SONFH samples in GSE123568."}], "state": "complete"}, {"id": "claim-data-access", "statement": "Publicly available datasets were analysed in this study. These datasets can be found at the following URLs: GSE123568 (https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE123568).", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:37491198", "locator": "sections[22] \"Availability of data and materials\" paragraph 2", "quote": "Publicly available datasets were analysed in this study. These datasets can be found at the following URLs: GSE123568 (https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE123568)."}], "state": "complete"}, {"id": "claim-target-result", "statement": "Bioinformatics analysis of the GSE123568 microarray dataset identified 10 pyroptosis-related differentially expressed genes between SONFH and non-SONFH samples.", "kind": "qualitative", "target": null, "evidence": [{"asset": "source:pmid:37491198", "locator": "sections[0] \"Abstract\" paragraph 2", "quote": "The pyroptosis-related differentially expressed genes involved in SONFH were identified with “affy” and “limma” R package by intersecting the GSE123568 dataset with pyroptosis genes."}], "state": "complete"}], "gaps": []}, "experiment": {"state": "complete", "objective": "Bioinformatics analysis of the GSE123568 microarray dataset identified 10 pyroptosis-related differentially expressed genes between SONFH and non-SONFH samples.", "steps": [{"id": "read_published_estimate", "order": 1, "name": "Read the published estimate from the source", "kind": "other", "state": "complete", "blocked_on": null, "description": "The claim, method and evidence span published with the source article.", "duration_hours": null, "parameters": {}, "inputs": ["source:pmid:37491198"], "outputs": ["the published estimate and its evidence"], "instruments": [], "reagents": []}, {"id": "obtain_source_data", "order": 2, "name": "Obtain the source data from the named repository", "kind": "data-preparation", "state": "complete", "blocked_on": null, "description": "The GEO series accession resolves and its sample accessions are listed. This lane did not download the dataset or read its licence.", "duration_hours": null, "parameters": {}, "inputs": ["data:geo:GSE123568"], "outputs": ["the source data with its repository provenance"], "instruments": [], "reagents": []}, {"id": "run_analysis", "order": 3, "name": "Run the published analysis", "kind": "analysis", "state": "complete", "blocked_on": null, "description": "Apply the paper's statistical method to the resolved series and compare the result with the published target.", "duration_hours": null, "parameters": {}, "inputs": ["data:geo:GSE123568"], "outputs": ["the replicated result and its comparison"], "instruments": [], "reagents": []}], "materials": [], "instruments": [], "reagents": [], "conditions": {}, "gaps": []}, "data": {"state": "partial", "assets": [{"id": "source:pmid:37491198", "role": "manuscript", "format": "xml", "media_type": "application/xml", "uri": "https://doi.org/10.1186/s12891-023-06729-8", "sha256": "sha256:ecc02a713ad89be8f895788235a08e42b9e876324f680b84ad3ef3921bc9a583", "bytes": 38876, "access": "open", "state": "resolved", "reader": null, "reader_status": "reader_required", "identifier": "10.1186/s12891-023-06729-8", "version": null, "note": "Full article fetched from PMC; the checksum covers the rendered section body, not the original XML bytes.", "structure": {"pmcid": "PMC10367407", "source": "europe_pmc_fulltext", "coverage": "whole_body", "text_hash_scope": "rendered_section_body"}}, {"id": "data:geo:GSE123568", "role": "raw", "format": "geo-series", "media_type": "application/vnd.ncbi.geo-series+json", "uri": "https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE123568", "sha256": null, "bytes": null, "access": "open", "state": "resolved", "reader": null, "reader_status": "reader_required", "identifier": "GSE123568", "version": null, "note": "Publicly available datasets were analysed in this study. 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